data_6VA0 # _model_server_result.job_id 2efKpZQYf5lMvIeuMrxCjg _model_server_result.datetime_utc '2024-11-15 00:03:46' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 6va0 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":601}' # _entry.id 6VA0 # _exptl.entry_id 6VA0 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 743.405 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 6VA0 _cell.length_a 157.364 _cell.length_b 157.364 _cell.length_c 113.566 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6VA0 _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall 'P 4abw 2nw' _symmetry.space_group_name_H-M 'P 41 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 8_665 -y+1,-x+1,-z+1/2 0 -1 0 -1 0 0 0 0 -1 157.364 157.364 56.783 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C21 H28 N7 O17 P3' _chem_comp.formula_weight 743.405 _chem_comp.id NAP _chem_comp.mon_nstd_flag . _chem_comp.name 'NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE" # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag PA O1A NAP doub 235 n n PA O2A NAP sing 236 n n PA O5B NAP sing 237 n n PA O3 NAP sing 238 n n O2A HOA2 NAP sing 239 n n O5B C5B NAP sing 240 n n C5B C4B NAP sing 241 n n C5B H51A NAP sing 242 n n C5B H52A NAP sing 243 n n C4B O4B NAP sing 244 n n C4B C3B NAP sing 245 n n C4B H4B NAP sing 246 n n O4B C1B NAP sing 247 n n C3B O3B NAP sing 248 n n C3B C2B NAP sing 249 n n C3B H3B NAP sing 250 n n O3B HO3A NAP sing 251 n n C2B O2B NAP sing 252 n n C2B C1B NAP sing 253 n n C2B H2B NAP sing 254 n n O2B P2B NAP sing 255 n n C1B N9A NAP sing 256 n n C1B H1B NAP sing 257 n n N9A C8A NAP sing 258 n y N9A C4A NAP sing 259 n y C8A N7A NAP doub 260 n y C8A H8A NAP sing 261 n n N7A C5A NAP sing 262 n y C5A C6A NAP sing 263 n y C5A C4A NAP doub 264 n y C6A N6A NAP sing 265 n n C6A N1A NAP doub 266 n y N6A H61A NAP sing 267 n n N6A H62A NAP sing 268 n n N1A C2A NAP sing 269 n y C2A N3A NAP doub 270 n y C2A H2A NAP sing 271 n n N3A C4A NAP sing 272 n y O3 PN NAP sing 273 n n PN O1N NAP doub 274 n n PN O2N NAP sing 275 n n PN O5D NAP sing 276 n n O5D C5D NAP sing 277 n n C5D C4D NAP sing 278 n n C5D H51N NAP sing 279 n n C5D H52N NAP sing 280 n n C4D O4D NAP sing 281 n n C4D C3D NAP sing 282 n n C4D H4D NAP sing 283 n n O4D C1D NAP sing 284 n n C3D O3D NAP sing 285 n n C3D C2D NAP sing 286 n n C3D H3D NAP sing 287 n n O3D HO3N NAP sing 288 n n C2D O2D NAP sing 289 n n C2D C1D NAP sing 290 n n C2D H2D NAP sing 291 n n O2D HO2N NAP sing 292 n n C1D N1N NAP sing 293 n n C1D H1D NAP sing 294 n n N1N C2N NAP sing 295 n y N1N C6N NAP doub 296 n y C2N C3N NAP doub 297 n y C2N H2N NAP sing 298 n n C3N C7N NAP sing 299 n n C3N C4N NAP sing 300 n y C7N O7N NAP doub 301 n n C7N N7N NAP sing 302 n n N7N H71N NAP sing 303 n n N7N H72N NAP sing 304 n n C4N C5N NAP doub 305 n y C4N H4N NAP sing 306 n n C5N C6N NAP sing 307 n y C5N H5N NAP sing 308 n n C6N H6N NAP sing 309 n n P2B O1X NAP doub 310 n n P2B O2X NAP sing 311 n n P2B O3X NAP sing 312 n n O2X HOP2 NAP sing 313 n n O3X HOP3 NAP sing 314 n n # _atom_sites.entry_id 6VA0 _atom_sites.fract_transf_matrix[1][1] 0.006355 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.006355 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.008805 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # _pdbx_nonpoly_scheme.asym_id B _pdbx_nonpoly_scheme.entity_id 2 _pdbx_nonpoly_scheme.mon_id NAP _pdbx_nonpoly_scheme.pdb_strand_id A _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 601 _pdbx_nonpoly_scheme.auth_seq_num 799 _pdbx_nonpoly_scheme.pdb_mon_id NAP _pdbx_nonpoly_scheme.auth_mon_id NAP _pdbx_nonpoly_scheme.pdb_ins_code . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 P PA NAP . . . B 2 7.497 92.819 30.112 1 77.82 ? PA NAP 601 A 1 HETATM 2 O O1A NAP . . . B 2 7.279 92.407 31.523 1 86.4 ? O1A NAP 601 A 1 HETATM 3 O O2A NAP . . . B 2 6.333 93.572 29.531 1 81.53 ? O2A NAP 601 A 1 HETATM 4 O O5B NAP . . . B 2 7.656 91.451 29.313 1 70.9 ? O5B NAP 601 A 1 HETATM 5 C C5B NAP . . . B 2 7.283 91.359 27.987 1 75.22 ? C5B NAP 601 A 1 HETATM 6 C C4B NAP . . . B 2 6.276 90.259 27.815 1 66.22 ? C4B NAP 601 A 1 HETATM 7 O O4B NAP . . . B 2 6.576 89.242 28.799 1 73.3 ? O4B NAP 601 A 1 HETATM 8 C C3B NAP . . . B 2 4.835 90.661 28.181 1 67.22 ? C3B NAP 601 A 1 HETATM 9 O O3B NAP . . . B 2 4.24 91.365 27.087 1 69.09 ? O3B NAP 601 A 1 HETATM 10 C C2B NAP . . . B 2 4.192 89.286 28.378 1 71.9 ? C2B NAP 601 A 1 HETATM 11 O O2B NAP . . . B 2 3.806 88.677 27.125 1 73.56 ? O2B NAP 601 A 1 HETATM 12 C C1B NAP . . . B 2 5.397 88.491 29.042 1 74.71 ? C1B NAP 601 A 1 HETATM 13 N N9A NAP . . . B 2 5.355 88.33 30.512 1 74.96 ? N9A NAP 601 A 1 HETATM 14 C C8A NAP . . . B 2 5.65 89.304 31.496 1 76.22 ? C8A NAP 601 A 1 HETATM 15 N N7A NAP . . . B 2 5.547 88.823 32.756 1 82.31 ? N7A NAP 601 A 1 HETATM 16 C C5A NAP . . . B 2 5.184 87.478 32.584 1 74.89 ? C5A NAP 601 A 1 HETATM 17 C C6A NAP . . . B 2 4.922 86.432 33.48 1 73.62 ? C6A NAP 601 A 1 HETATM 18 N N6A NAP . . . B 2 5.003 86.624 34.848 1 80.37 ? N6A NAP 601 A 1 HETATM 19 N N1A NAP . . . B 2 4.58 85.2 33.002 1 76 ? N1A NAP 601 A 1 HETATM 20 C C2A NAP . . . B 2 4.515 85.053 31.68 1 73 ? C2A NAP 601 A 1 HETATM 21 N N3A NAP . . . B 2 4.733 85.932 30.72 1 75.6 ? N3A NAP 601 A 1 HETATM 22 C C4A NAP . . . B 2 5.07 87.156 31.196 1 76.54 ? C4A NAP 601 A 1 HETATM 23 O O3 NAP . . . B 2 8.803 93.788 30.182 1 75.09 ? O3 NAP 601 A 1 HETATM 24 P PN NAP . . . B 2 10.039 94.036 29.224 1 72.52 ? PN NAP 601 A 1 HETATM 25 O O1N NAP . . . B 2 9.686 93.637 27.828 1 77.43 ? O1N NAP 601 A 1 HETATM 26 O O2N NAP . . . B 2 10.566 95.437 29.313 1 82.42 ? O2N NAP 601 A 1 HETATM 27 O O5D NAP . . . B 2 11.191 93.079 29.733 1 78.1 ? O5D NAP 601 A 1 HETATM 28 C C5D NAP . . . B 2 11.896 92.165 28.879 1 74.96 ? C5D NAP 601 A 1 HETATM 29 C C4D NAP . . . B 2 13.247 91.915 29.501 1 74.99 ? C4D NAP 601 A 1 HETATM 30 O O4D NAP . . . B 2 13.991 93.141 29.435 1 82.86 ? O4D NAP 601 A 1 HETATM 31 C C3D NAP . . . B 2 13.204 91.5 30.999 1 76.13 ? C3D NAP 601 A 1 HETATM 32 O O3D NAP . . . B 2 14.057 90.439 31.237 1 76.31 ? O3D NAP 601 A 1 HETATM 33 C C2D NAP . . . B 2 13.654 92.783 31.725 1 83.04 ? C2D NAP 601 A 1 HETATM 34 O O2D NAP . . . B 2 14.429 92.558 32.859 1 85.55 ? O2D NAP 601 A 1 HETATM 35 C C1D NAP . . . B 2 14.592 93.349 30.686 1 85.82 ? C1D NAP 601 A 1 HETATM 36 N N1N NAP . . . B 2 14.782 94.814 30.876 1 89.46 ? N1N NAP 601 A 1 HETATM 37 C C2N NAP . . . B 2 15.783 95.201 31.692 1 91.04 ? C2N NAP 601 A 1 HETATM 38 C C3N NAP . . . B 2 16.015 96.541 31.909 1 92.49 ? C3N NAP 601 A 1 HETATM 39 C C7N NAP . . . B 2 17.136 96.893 32.826 1 99.82 ? C7N NAP 601 A 1 HETATM 40 O O7N NAP . . . B 2 17.635 96.005 33.536 1 103.15 ? O7N NAP 601 A 1 HETATM 41 N N7N NAP . . . B 2 17.559 98.159 32.838 1 96.14 ? N7N NAP 601 A 1 HETATM 42 C C4N NAP . . . B 2 15.207 97.513 31.279 1 91.94 ? C4N NAP 601 A 1 HETATM 43 C C5N NAP . . . B 2 14.186 97.092 30.436 1 88.97 ? C5N NAP 601 A 1 HETATM 44 C C6N NAP . . . B 2 13.965 95.74 30.228 1 84.83 ? C6N NAP 601 A 1 HETATM 45 P P2B NAP . . . B 2 2.362 88.04 26.951 1 83.05 ? P2B NAP 601 A 1 HETATM 46 O O1X NAP . . . B 2 1.864 88.185 25.514 1 80.56 ? O1X NAP 601 A 1 HETATM 47 O O2X NAP . . . B 2 1.39 88.592 27.96 1 86.53 ? O2X NAP 601 A 1 HETATM 48 O O3X NAP . . . B 2 2.675 86.582 27.283 1 75.35 ? O3X NAP 601 A 1 # _model_server_stats.io_time_ms 24 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 300 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 48 #